Resource
| Id | ATAC-seq/ENCSR554WGQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR554WGQ [biosample_summary="Homo sapiens HG03280"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN708FCI|/analyses/ENCAN708FCI/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: NRF (Non Redundant Fraction) is equal to the result of the division of the number of reads after duplicates removal by the total number of reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF588QWF|/files/ENCFF588QWF/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.847084. audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF588QWF|/files/ENCFF588QWF/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.86. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR554WGQ | float |
ATAC-seq_ENCSR554WGQ |
ATAC-seq ENCSR554WGQ [biosample_summary="Homo sapiens HG03280"]
|
 |
[1.45, 42.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49872873 | 1.55% | 94347 |
| chr1 | 4529782 | 1.82% | 8394 |
| chr2 | 4346566 | 1.79% | 8465 |
| chr3 | 3475819 | 1.75% | 6795 |
| chr4 | 2819143 | 1.48% | 5658 |
| chr5 | 3043374 | 1.68% | 6011 |
| chr6 | 3375647 | 1.98% | 6455 |
| chr7 | 2809138 | 1.76% | 5460 |
| chr8 | 2467796 | 1.70% | 4860 |
| chr9 | 1980485 | 1.43% | 3744 |
| chr10 | 2339083 | 1.75% | 4488 |
| chr11 | 2400836 | 1.78% | 4530 |
| chr12 | 2514893 | 1.89% | 4723 |
| chr13 | 1329660 | 1.16% | 2564 |
| chr14 | 1528797 | 1.43% | 2841 |
| chr15 | 1416203 | 1.39% | 2607 |
| chr16 | 1407486 | 1.56% | 2397 |
| chr17 | 1779957 | 2.14% | 3015 |
| chr18 | 1090185 | 1.36% | 2168 |
| chr19 | 1498244 | 2.56% | 2362 |
| chr20 | 1063173 | 1.65% | 1982 |
| chr21 | 467006 | 1.00% | 821 |
| chr22 | 681007 | 1.34% | 1140 |
| chrX | 1412111 | 0.90% | 2665 |
| chrY | 96482 | 0.17% | 202 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 94347 | 150 | 3242 | 528.61 | 429 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF817JLB.bed.gz | 3.59 MB | 1a10cc71363137dc82834feb746909be |
| ENCFF817JLB.tabix.bed.gz | 1.02 MB | cd19968506a8c8bf57d9cd14ffda75d7 |
| ENCFF817JLB.tabix.bed.gz.tbi | 438.73 KB | 115316c3d19d5f4d566802e089234351 |
| genomic_resource.yaml | 2.49 KB | dee5c51b6a6af2d00d950e3d5e09b278 |
| statistics/ |